| Round | Overall | Player |
|---|---|---|
| 1 | 6th | DH David Ortiz Bos |
| 2 | 19th | OF Carlos Lee Hou |
| 3 | 30th | SP Justin Verlander Det |
| 4 | 43rd | SP Josh Beckett Bos |
| 5 | 54th | OF Nick Markakis Bal |
| 6 | 67th | OF Nick Swisher ChA |
| 7 | 78th | 3B Ryan Zimmerman Was |
| 8 | 91st | SS Rafael Furcal LAD |
| 9 | 102nd | OF Torii Hunter LAA |
| 10 | 115th | SP Jeff Francis Col |
| 11 | 126th | SP Brett Myers Phi |
| 12 | 139th | 2B Aaron Hill Tor |
| 13 | 150th | C Kenji Johjima Sea |
| 14 | 163rd | SP Yovani Gallardo Mil |
| 15 | 174th | RP Brad Lidge Phi |
| 16 | 187th | SP Ted Lilly ChN |
| 17 | 198th | 1B Conor Jackson Ari |
| 18 | 211th | OF Austin Kearns Was |
| 19 | 222nd | RP Eric Gagne Mil |
| 20 | 235th | 3B Ty Wigginton Bal |
| 21 | 246th | 2B Jose Lopez Sea |
| 22 | 259th | DH Frank Thomas Oak |
| 23 | 270th | SS Yuniesky Betancourt Sea |
| 24 | 283rd | RP Jeremiah Accardo Tor |
| 25 | 294th | OF David DeJesus KC |
| 26 | 307th | C Mike Napoli LAA |
| 27 | 318th | SP Randy Johnson Ari |
| 28 | 331st | SP Kevin Slowey Min |
| 29 | 342nd | SP Dave Bush Mil |